Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaagtctctacattttctactttaaatgattttgctcttaattttaatagtgtatgtttcttttgtgtgatgtgttttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
Basic information
| species | Arabidopsis thaliana |
| transcript | AT5G23900.1 |
| intron # | 2 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G23900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os03g37970.1 (Oryza sativa), 3'ss of exon 2
------------gttagtaaa-gtctctacattttctactttaaatgattttgctcttaattttaatagtgtatgtttcttttgtgtgatgtgttttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
|| ||| | | | | || ||| | | || | | ||| | || | |||| | | | |||| | ||||| | |||||||||||||||||||||||||| || || || ||||| ||||| ||||| ||||||| | || || | |||||||||||||| ||
agctagcataaccacagcaaatatgtttgcgcccgcttttttcaccttatatg-tgtgcattcttatgacaatcatcctttttttttcttttgttgta-cagCTCGCCAGAAGAAGGCTGTGAAGATCTTCCCCCGCCCAACATCTGGCCCTCTTCGACCCATTGTTCAGTGCCAAACTTTGAAGTACAACATGAAGTCGAG
upper sequence: AT5G23900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os06g02510.3 (Oryza sativa), 3'ss of exon 2
----------gttagtaaagtctctacattttctactttaa-atgattttgctcttaattttaatagtgtatgtttcttttgtgtgatgtgttttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
| || | || ||||| | || || ||| | | | | ||| || | | || | || || | | ||| ||||||| || ||||| ||||||||||||||||| || || || ||||| || || || || ||||||| | || |||||||||||||||||||| |||
tatttgtagtcctgcatgaggcattaaattttatgtttgaagatgctgctatttcttttttacccagcatctaattttcttttggtgttggcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCACTTCGCCCCATTGTTCAGTGCCAAACACTTAAGTACAACATGAAGTCTAG
upper sequence: AT5G23900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G17370.2 (Glycine max), 3'ss of exon 1
----------------------------------------------gttagtaaa---gtctctacattttctacttta--------aatgatttt--gctcttaattttaatagtgtatgtttcttttgtgtgatgtgt---------tttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
||| | | | || | | || | | | ||| | || | | | || | | |||| | | | | | | ||| || ||| |||||| | |||||||||||||| ||||| ||||| | || || |||| ||||| | ||| |||||||||| ||||| || || |||||||||||||| ||
gtaatttaacctaatctcttgctcttttttaacattgtaatacttaattaatcagtctggcttaatacttgtaattcaagaaacaagaatcagcttgagttgtcaacaattgttgtgtgtatctttatattttgactcgtgggtaacactttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTCTCAGGCCTATTGTTCATGGCCAGACTCTGAAATACAACATGAAAGTCAG
upper sequence: AT5G23900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G08090.1 (Glycine max), 3'ss of exon 2
-------------------------------------gttagtaaagtctctacattt-tctactttaaatg---attttgctcttaattttaat-agtgtatgtttcttttgtgtgatg----tgttttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
||| || | | | || || ||| ||| || ||| || | ||| | | ||| ||| | | || |||||| | |||||||||||||| ||||| ||||| | || || |||| |||||| | || |||||||||| ||||| || || |||||||||||||| ||
gtaatttttaccaaaattattgctctttgttaacattgttgctataattaattaatcaatcagtttttaatacttgttatgcaagaaaagtgaatcaacttgagttattttgacacgggggtgacacattttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCAAGGCCTACTGCTGGACCTCTCAGGCCAATTGTTCATGGCCAGACTCTGAAATACAACATGAAAGTCAG
upper sequence: AT5G23900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv13s0047g01160.t01 (Vitis vinifera), 3'ss of exon 1
----------gttagtaaagtctct-acattttctactttaaatgattttgctcttaattttaat-agtgtatgtttcttttgtgtgatgtgttttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
|| || ||||| | | ||||| | || | || | || ||| | | || || || |||| ||| | || |||||||||||||||| ||||||||||| |||||||| ||||| ||| || || || || |||||||||| || || | ||||||||||||||||| ||
tcatgtttgattttgtccagtcttttatattttgaatatttgtaccatgtgatgctattttaactgagcttaaattggtttttcatgaaaccatctc-cagCTAGACAGAAGAAAGCTGTGAAGATTTTCCCTCGCCCCACTGTTGGACCACTTCGCCCACTTGTTCATGGACAAACTTTGAAGTACAACATGAAAGTCAG
upper sequence: AT5G23900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0006g00820.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------gttagtaaagtctctacattttctactttaaatgattttgct--cttaattt-taatagtgtatgtttcttttgtgtgatgtgttttctc-agCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
| || | | | | | | | || || || ||| |||| | | | | | | | || ||| || | | |||| |||||| || ||||||||||||||||||||||| || ||||| ||||| || || |||||| |||| ||||| || || || |||||||| |||||||||||
gtagctacttaaccattttaaaatggaaatggtgtttttcctgtcttgctaattagttggtcataatgattctgtttcattatcaagcttgcttattctgtgctcgcattttcttgacatgtctgttataccatctccagCTAGGCAAAAGAAGGCTGTGAAGATCTTCCCACGGCCCACGTCTGGACCACTTCGACCTATTGTCCATGGGCAAACTCTGAAGTACAATATGAAAGTTAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|125056580|gb|EL126263.1|EL126263EST: AAGACAAGGAGACGTGTTG CTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTC
genomic: AAGACAAGGAGACGTGTTGgttagtaaag ... gttttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTC
EST:
gi|124958655|gb|EL033385.1|EL033385EST: CAAGACTTGGTTTAACCAGCCTGCCAGGAAGACAAGGAGACGTGT-G CTAGACAGAAGAAGGCT
genomic: CAAGACTTGGTTTAACCAGCCTGCCAGGAAGACAAGGAGACGTGTTGgttagtaaag ... gttttctcagCTAGACAGAAGAAGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgctcttaattttaatagtgtatgtttcttttgtgtgatgtgttttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG
ttttaat putative branch site (score: 3)
tgttttctc putative PPT
ttaattttaatagtgt TA-rich tract
